title: The utility of indels in population genetics: the Tpi intron for host race genealogy of Acrocercops transecta (Insecta: Lepidoptera).
abstract: We investigated the utility of indel data for genealogical and population genetic analyses using the Tpi intron of the leaf mining moth Acrocercops transecta (Insecta: Lepidoptera). Genealogical analyses revealed that indel data were less homoplasious than DNA sequence data and that indel data contained a sufficient signal to provide a high resolution tree that was highly congruent with the tree estimated from DNA sequences. Although some conflicts were identified in the distributions of multi-residue indels, such conflicts were especially useful for the unambiguous detection of recombinations. For the first time, we adopted a Bayesian clustering method for indel characters to infer genetic structure of the moth. We concluded that indel characters have the potential to be a powerful tool in the analysis of population genetics and population structure as well as in the detection of gene flow.
authors.affiliation: Division of Evolutionary Biology, National Institute for Basic Biology, Okazaki 444-8585, Japan.
authors.forename: Issei
authors.initials: I
authors.lastname: Ohshima
authors.forename: Kazunori
authors.initials: K
authors.lastname: Yoshizawa
mesh_terms: D000818:Animals; D001483:Base Sequence; D001499:Bayes Theorem; D002965:Classification / Q000379:methods*; D005828:Genetics, Population; D054643:INDEL Mutation / Q000235:genetics*; D007438:Introns / Q000235:genetics*; D008957:Models, Genetic; D008969:Molecular Sequence Data; D009036:Moths / Q000235:genetics*; D010802:Phylogeny; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA